Locus 2419

Sequence ID 2L_DroMel_CAF1
Location 6,605,285 – 6,605,405
Length 120
Max. P 0.644959
window3891

overview

Window 1

Location 6,605,285 – 6,605,405
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.56
Mean single sequence MFE -29.68
Consensus MFE -7.96
Energy contribution -9.38
Covariance contribution 1.42
Combinations/Pair 1.16
Mean z-score -1.72
Structure conservation index 0.27
SVM decision value 0.23
SVM RNA-class probability 0.644959
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6605285 120 + 22407834
ACGUAUCUCACUGACAUUUGGGGCAACUCAAUGCAAACCGAAACUGCGAGACGCAAACACAUGUUUUGGCAUUGCAGAAACUGCAGCGAAAUUUUCUGAUACAGAAAACAUAUUUCGAUG
...((((((.(((.((.(((((....)))))(((((.(((((((((((...)))).......)))))))..))))).....))))).))..(((((((...)))))))........)))) ( -29.21)
>DroSec_CAF1 32596 106 + 1
ACGACUUUUAGUGGCAUAUGGGGAAACUCGAUGCAAACCGAA--------------ACACAUGUUUUGGCAUUGCUGAAACUGCAUGGAAAUUUUCUGAUACAGAAAAGAUAUUUCGAUG
.....(((((((.((((.((((....))))))))...(((((--------------((....)))))))....)))))))...(((.(((((((((((...))))))....))))).))) ( -30.10)
>DroSim_CAF1 33808 106 + 1
ACGACUUUUAGUGGCAUUUGGGGCAACUCGAUGCAAACCGAA--------------ACACAUGUUUUGGCAUUGCAGAAACUGCAUGGAAAUUUUCUGAUACAGAAAACAUAUUUCGAUG
........((((..(..(((((....)))))(((((.(((((--------------((....)))))))..))))))..))))(((.(((((((((((...))))))....))))).))) ( -29.20)
>DroEre_CAF1 33691 99 + 1
GCGU---------------------ACUCGAUGCAAACCGAAACUGCGAGACGCAAACACAUGUUUUGGCUUUUCAGAAGCUGCAGGCAAACUUGCUGAUACAGAAAACAUAUUUCGAUG
((((---------------------.((((................))))))))......(((((((((((((...))))))(((((....)))))........)))))))......... ( -22.99)
>DroYak_CAF1 34287 117 + 1
GCGUGUUUCGGUGGCAUUUG---CAACUCGUUGCAAGCUGAAACUGCGAGACGCAAGCACAUGUUUUGGCUUUGCAGAAGAUGCAGGGAAAUUGGCUGAUACGGAAAGCAUGUUUCGAUG
((((.((.((((..((((((---(((....))))))).))..)))).)).))))....(((((((((..(((((((.....))))))).......(((...))))))))))))....... ( -36.90)
>consensus
ACGUCUUUCAGUGGCAUUUGGGGCAACUCGAUGCAAACCGAAACUGCGAGACGCAAACACAUGUUUUGGCAUUGCAGAAACUGCAGGGAAAUUUUCUGAUACAGAAAACAUAUUUCGAUG
.((........................((.(((((.........(((.....))).......((((..((...))..))))))))).))..(((((((...))))))).......))... ( -7.96 =  -9.38 +   1.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:34 2006